Your message dated Mon, 28 Feb 2011 08:47:36 +0000
with message-id <[email protected]>
and subject line Bug#615690: fixed in acedb 4.9.39+dfsg.01-2
has caused the Debian Bug report #615690,
regarding acedb: ftbfs with gold or ld --no-add-needed
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
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--
615690: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=615690
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: acedb
Version: 4.9.39+dfsg.01-1
Severity: important
Tags: sid
User: [email protected]
Usertags: no-add-needed
The package fails to build in a test rebuild on at least amd64 with
ld --no-add-needed. For details, please see:
http://lists.debian.org/debian-devel-announce/2011/02/msg00011.html
http://wiki.debian.org/ToolChain/DSOLinking
Ubuntu might have a patch for this issue, but unfortunately it was
not forwarded to Debian. Please have a look at
http://packages.qa.debian.org/acedb to see if an Ubuntu version for
this package exists, and if a fix is included in the Ubuntu diff.
[...]
gcc -g -Wall -DACEDB4 `../w3rdparty/include-config glib-2.0 gtk+-2.0` -I..
-I../wh -I../wstaden -DACEDB_GTK -DLINUX -c -o blxparser.o blxparser.c
gcc -g -Wall -DACEDB4 `../w3rdparty/include-config glib-2.0 gtk+-2.0` -I..
-I../wh -I../wstaden -DACEDB_GTK -DLINUX -c -o translate.o translate.c
In file included from translate.c:34:0:
../wh/iupac.h:36:3: warning: missing braces around initializer
../wh/iupac.h:36:3: warning: (near initialization for 'PAM120[0]')
../wh/iupac.h:129:3: warning: missing braces around initializer
../wh/iupac.h:129:3: warning: (near initialization for 'iupac[0]')
gcc -g -Wall -DACEDB4 `../w3rdparty/include-config glib-2.0 gtk+-2.0` -g -I..
-I../wh -I../wstaden -DACEDB_GTK -DLINUX -c -o dotter.o dotter.c
gcc -g -Wall -DACEDB4 `../w3rdparty/include-config glib-2.0 gtk+-2.0` -I..
-I../wh -I../wstaden -DACEDB_GTK -DLINUX -c -o dotterKarlin.o dotterKarlin.c
dotterKarlin.c: In function 'winsizeFromlambdak':
dotterKarlin.c:378:2: warning: array subscript has type 'char'
dotterKarlin.c:380:6: warning: array subscript has type 'char'
dotterKarlin.c:387:2: warning: array subscript has type 'char'
dotterKarlin.c:388:6: warning: array subscript has type 'char'
gcc -g -o blixem blixem.o blxmain.o blxparser.o dotter.o dotterKarlin.o \
translate.o -L. -lgex -lgraph -lgd -lfree `../w3rdparty/acedb-config
glib-2.0 gtk+-2.0` -L/usr/X11R6/lib `../w3rdparty/libs-config glib-2.0
gtk+-2.0` -lm -lcurses -lreadline
./libgraph.a(graphascii.o): In function `graphASCII':
/build/user-acedb_4.9.39+dfsg.01-1-amd64-PG7SGX/acedb-4.9.39+dfsg.01/bin.LINUX_4/graphascii.c:264:
warning: the use of `tempnam' is dangerous, better use `mkstemp'
./libgraph.a(graphprint.o): In function `pdInit':
/build/user-acedb_4.9.39+dfsg.01-1-amd64-PG7SGX/acedb-4.9.39+dfsg.01/bin.LINUX_4/graphprint.c:1164:
warning: the `getwd' function is dangerous and should not be used.
/usr/bin/ld: ./libgex.a(graphgdkremote.o): undefined reference to symbol 'XFree'
/usr/bin/ld: note: 'XFree' is defined in DSO /usr/lib64/libX11.so.6 so try
adding it to the linker command line
/usr/lib64/libX11.so.6: could not read symbols: Invalid operation
collect2: ld returned 1 exit status
make[2]: *** [blixem] Error 1
make[2]: Leaving directory
`/build/user-acedb_4.9.39+dfsg.01-1-amd64-PG7SGX/acedb-4.9.39+dfsg.01/bin.LINUX_4'
make[1]: *** [blixem] Error 2
make: *** [build-arch-stamp] Error 2
make[1]: Leaving directory
`/build/user-acedb_4.9.39+dfsg.01-1-amd64-PG7SGX/acedb-4.9.39+dfsg.01'
dpkg-buildpackage: error: debian/rules build gave error exit status 2
--- End Message ---
--- Begin Message ---
Source: acedb
Source-Version: 4.9.39+dfsg.01-2
We believe that the bug you reported is fixed in the latest version of
acedb, which is due to be installed in the Debian FTP archive:
acedb-other-belvu_4.9.39+dfsg.01-2_amd64.deb
to main/a/acedb/acedb-other-belvu_4.9.39+dfsg.01-2_amd64.deb
acedb-other-dotter_4.9.39+dfsg.01-2_amd64.deb
to main/a/acedb/acedb-other-dotter_4.9.39+dfsg.01-2_amd64.deb
acedb-other_4.9.39+dfsg.01-2_amd64.deb
to main/a/acedb/acedb-other_4.9.39+dfsg.01-2_amd64.deb
acedb_4.9.39+dfsg.01-2.debian.tar.gz
to main/a/acedb/acedb_4.9.39+dfsg.01-2.debian.tar.gz
acedb_4.9.39+dfsg.01-2.dsc
to main/a/acedb/acedb_4.9.39+dfsg.01-2.dsc
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated acedb package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
Format: 1.8
Date: Mon, 28 Feb 2011 08:25:33 +0100
Source: acedb
Binary: acedb-other-dotter acedb-other-belvu acedb-other
Architecture: source amd64
Version: 4.9.39+dfsg.01-2
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description:
acedb-other - retrieval of DNA or protein sequences
acedb-other-belvu - multiple sequence alignment editor
acedb-other-dotter - visualisation of sequence similarity
Closes: 615690
Changes:
acedb (4.9.39+dfsg.01-2) unstable; urgency=low
.
* Applied Ubuntu patch to Debian packaging (thanks to
Fabrice Coutadeur)
Closes: #615690
* debian/watch: mangle version with dfsg
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acedb_4.9.39+dfsg.01-2.debian.tar.gz
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acedb-other-dotter_4.9.39+dfsg.01-2_amd64.deb
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acedb-other-belvu_4.9.39+dfsg.01-2_amd64.deb
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acedb-other-dotter_4.9.39+dfsg.01-2_amd64.deb
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Files:
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acedb-other-dotter_4.9.39+dfsg.01-2_amd64.deb
10412f42190a1c440cda28302e1a3732 210572 science extra
acedb-other-belvu_4.9.39+dfsg.01-2_amd64.deb
69601919dd3f69b35800024feacafabd 17058 science extra
acedb-other_4.9.39+dfsg.01-2_amd64.deb
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--- End Message ---
